import torch import torch.nn as nn from models_trans import BasicTransformer, LinearTransformer, SparseTransformer from timm.models.layers import trunc_normal_ def create_block(d_model=192, n_heads=8, d_head=24, dropout=0.1, map_name="elu+1", block_name="basic", return_attn=False): if block_name == "basic": return BasicTransformer(d_model, n_heads, d_head, dropout=dropout, return_attn=return_attn) elif block_name == "basic-gated": return BasicTransformer(d_model, n_heads, d_head, dropout=dropout, is_gated=True, return_attn=return_attn) elif block_name == "flash": return BasicTransformer(d_model, n_heads, d_head, dropout=dropout, use_flash_attention=True, return_attn=return_attn) elif block_name == "flash-gated": return BasicTransformer(d_model, n_heads, d_head, dropout=dropout, use_flash_attention=True, is_gated=True, return_attn=return_attn) elif block_name == "linear": return LinearTransformer(d_model, dropout=dropout, map_name=map_name) elif block_name == "sparse": return SparseTransformer(d_model, n_heads, dropout=dropout) else: raise NotImplementedError(f"Block {block_name} not implemented") from timm.models.layers import trunc_normal_, lecun_normal_ import math import time from functools import partial # https://github.com/huggingface/transformers/blob/c28d04e9e252a1a099944e325685f14d242ecdcd/src/transformers/models/gpt2/modeling_gpt2.py#L454 def _init_weights( module, n_layer, initializer_range=0.02, # Now only used for embedding layer. rescale_prenorm_residual=True, n_residuals_per_layer=1, # Change to 2 if we have MLP ): if isinstance(module, nn.Linear): if module.bias is not None: if not getattr(module.bias, "_no_reinit", False): nn.init.zeros_(module.bias) elif isinstance(module, nn.Embedding): nn.init.normal_(module.weight, std=initializer_range) if rescale_prenorm_residual: # Reinitialize selected weights subject to the OpenAI GPT-2 Paper Scheme: # > A modified initialization which accounts for the accumulation on the residual path with model depth. Scale # > the weights of residual layers at initialization by a factor of 1/√N where N is the # of residual layers. # > -- GPT-2 :: https://openai.com/blog/better-language-models/ # # Reference (Megatron-LM): https://github.com/NVIDIA/Megatron-LM/blob/main/megatron/model/gpt_model.py for name, p in module.named_parameters(): if name in ["out_proj.weight", "fc2.weight"]: # Special Scaled Initialization --> There are 2 Layer Norms per Transformer Block # Following Pytorch init, except scale by 1/sqrt(2 * n_layer) # We need to reinit p since this code could be called multiple times # Having just p *= scale would repeatedly scale it down nn.init.kaiming_uniform_(p, a=math.sqrt(5)) with torch.no_grad(): p /= math.sqrt(n_residuals_per_layer * n_layer) def segm_init_weights(m): if isinstance(m, nn.Linear): trunc_normal_(m.weight, std=0.02) if isinstance(m, nn.Linear) and m.bias is not None: nn.init.constant_(m.bias, 0) elif isinstance(m, (nn.Conv2d, nn.Conv1d)): # NOTE conv was left to pytorch default in my original init lecun_normal_(m.weight) if m.bias is not None: nn.init.zeros_(m.bias) elif isinstance(m, (nn.LayerNorm, nn.GroupNorm, nn.BatchNorm2d)): nn.init.zeros_(m.bias) nn.init.ones_(m.weight) class StrideEmbed(nn.Module): def __init__(self, arr_length=1600, stride_size=4, in_chans=1, embed_dim=192): super().__init__() assert arr_length % stride_size == 0 self.num_patches = arr_length // stride_size self.proj = nn.Conv1d(in_chans, embed_dim, kernel_size=stride_size, stride=stride_size) def forward(self, x): """ x: [B, N] """ return self.proj(x).transpose(1, 2) # [B, N, D] class NetTransformer(nn.Module): def __init__(self, arr_length=1600, stride_size=4, in_chans=1, embed_dim=192, depth=4, decoder_embed_dim=128, decoder_depth=2, num_classes=1000, n_heads=8, block_name="basic", norm_pix_loss=False, drop_rate=0., is_pretrain=False, if_cls_token=True, device=None, dtype=None, return_attn=False, **kwargs): super().__init__() factory_kwargs = {"device": device, "dtype": dtype} # add factory_kwargs into kwargs kwargs.update(factory_kwargs) self.num_classes = num_classes self.d_model = self.num_features = self.embed_dim = embed_dim # num_features for consistency with other models self.is_pretrain = is_pretrain self.return_attn = return_attn self.stride_size = stride_size # -------------------------------------------------------------------------- # NetMamba encoder specifics self.patch_embed = StrideEmbed(arr_length=arr_length, stride_size=stride_size, embed_dim=embed_dim) self.num_patches = self.patch_embed.num_patches self.if_cls_token = if_cls_token if if_cls_token: self.cls_token = nn.Parameter(torch.zeros(1, 1, embed_dim)) self.num_cls_token = 1 else: self.num_cls_token = 0 self.pos_embed = nn.Parameter(torch.zeros(1, self.num_patches + self.num_cls_token, embed_dim)) self.pos_drop = nn.Dropout(p=drop_rate) # Mamba blocks self.blocks = nn.ModuleList([ create_block(d_model=embed_dim, n_heads=n_heads, d_head=embed_dim // n_heads, dropout=0.1, block_name=block_name, return_attn=return_attn) for _ in range(depth)]) # -------------------------------------------------------------------------- if is_pretrain: # -------------------------------------------------------------------------- # NetMamba decoder specifics self.decoder_embed = nn.Linear(embed_dim, decoder_embed_dim, bias=True) self.mask_token = nn.Parameter(torch.zeros(1, 1, decoder_embed_dim)) self.decoder_pos_embed = nn.Parameter(torch.zeros(1, self.num_patches + self.num_cls_token, decoder_embed_dim)) self.decoder_blocks = nn.ModuleList([ create_block(d_model=decoder_embed_dim, n_heads=n_heads, d_head=decoder_embed_dim // n_heads, dropout=0.1, block_name=block_name, return_attn=return_attn) for _ in range(decoder_depth)]) self.decoder_pred = nn.Linear(decoder_embed_dim, stride_size * in_chans, bias=True) # decoder to stride # -------------------------------------------------------------------------- else: # -------------------------------------------------------------------------- # NetMamba classifier specifics self.head = nn.Linear(self.num_features, num_classes) if num_classes > 0 else nn.Identity() # -------------------------------------------------------------------------- self.norm_pix_loss = norm_pix_loss self.initialize_weights(depth) def initialize_weights(self, depth): self.patch_embed.apply(segm_init_weights) if not self.is_pretrain: self.head.apply(segm_init_weights) trunc_normal_(self.pos_embed, std=.02) trunc_normal_(self.cls_token, std=.02) if self.is_pretrain: trunc_normal_(self.decoder_pos_embed, std=.02) trunc_normal_(self.mask_token, std=.02) # initialize nn.Linear and nn.LayerNorm self.apply(partial(_init_weights, n_layer=depth,)) @torch.jit.ignore def no_weight_decay(self): return {"pos_embed", "cls_token", "dist_token", "cls_token_head", "cls_token_tail"} def stride_patchify(self, imgs): """ imgs: (N, 1, H, W) x: (N, L, patch_size**2 *1) """ B, C, H, W = imgs.shape assert C == 1, "Input images should be grayscale" stride_size = self.stride_size x = imgs.reshape(B, H*W // stride_size, stride_size) return x def random_masking(self, x, mask_ratio): """ Perform per-sample random masking by per-sample shuffling. Per-sample shuffling is done by argsort random noise. x: [B N D], sequence """ B, N, D = x.shape # batch, length, dim len_keep = int(N * (1 - mask_ratio)) noise = torch.rand(B, N, device=x.device) # noise in [0, 1] # sort noise for each sample ids_shuffle = torch.argsort(noise, dim=1) # ascend: small is keep, large is remove ids_restore = torch.argsort(ids_shuffle, dim=1) # ids_restore[i] = i-th noise element's rank # keep the first subset ids_keep = ids_shuffle[:, :len_keep] x_masked = torch.gather(x, dim=1, index=ids_keep.unsqueeze(-1).repeat(1, 1, D)) # x_masked are acctually non-masked elements # generate the binary mask: 0 is keep, 1 is remove mask = torch.ones([B, N], device=x.device) mask[:, :len_keep] = 0 # unshuffle to get the binary mask mask = torch.gather(mask, dim=1, index=ids_restore) return x_masked, mask, ids_restore def forward_encoder(self, x, mask_ratio, if_mask=True): """ x: [B, 1, H, W] """ # embed patches B, C, H, W = x.shape x = self.patch_embed(x.reshape(B, C, -1)) # add pos embed w/o cls token if self.if_cls_token: x = x + self.pos_embed[:, :-1, :] else: x = x + self.pos_embed # masking: length -> length * mask_ratio if if_mask: x, mask, ids_restore = self.random_masking(x, mask_ratio) # append cls token if self.if_cls_token: cls_token = self.cls_token + self.pos_embed[:, -1, :] cls_tokens = cls_token.expand(x.shape[0], -1, -1) x = torch.cat((x, cls_tokens), dim=1) x = self.pos_drop(x) # apply Mamba blocks attn_list = [] for blk in self.blocks: if self.return_attn: x, attn = blk(x) attn_list.append(attn) else: x = blk(x) if if_mask: return x, mask, ids_restore else: # return x if self.return_attn: return x, attn_list else: return x def forward_decoder(self, x, ids_restore): # embed tokens x = self.decoder_embed(x) # append mask tokens to sequence mask_tokens = self.mask_token.repeat(x.shape[0], ids_restore.shape[1] + self.num_cls_token - x.shape[1], 1) if self.if_cls_token: visible_tokens = x[:, :-1, :] else: visible_tokens = x x_ = torch.cat([visible_tokens, mask_tokens], dim=1) # no cls token x_ = torch.gather(x_, dim=1, index=ids_restore.unsqueeze(-1).repeat(1, 1, x.shape[2])) # unshuffle if self.if_cls_token: x = torch.cat([x_, x[:, -1:, :]], dim=1) # append cls token else: x = x_ # add pos embed x = x + self.decoder_pos_embed # apply Mamba blocks for blk in self.decoder_blocks: x = blk(x) # predictor projection x = self.decoder_pred(x) # remove cls token if self.if_cls_token: x = x[:, :-1, :] return x def forward_rec_loss(self, imgs, pred, mask): """ imgs: [N, 1, H, W] pred: [N, L, p*p*1] mask: [N, L], 0 is keep, 1 is remove, """ target = self.stride_patchify(imgs) if self.norm_pix_loss: mean = target.mean(dim=-1, keepdim=True) var = target.var(dim=-1, keepdim=True) target = (target - mean) / (var + 1.e-6) ** .5 loss = (pred - target) ** 2 loss = loss.mean(dim=-1) # [N, L], mean loss per patch loss = (loss * mask).sum() / mask.sum() # mean loss on removed patches return loss def forward(self, imgs, mask_ratio=0.9, **kwargs): # imgs: [B, 1, H, W] B, C, H, W = imgs.shape assert C == 1, "Input images should be grayscale" if self.is_pretrain: latent, mask, ids_restore = self.forward_encoder(imgs, mask_ratio=mask_ratio,) pred = self.forward_decoder(latent, ids_restore) loss = self.forward_rec_loss(imgs, pred, mask) return loss, pred, mask else: if self.return_attn: x, attn_list = self.forward_encoder(imgs, mask_ratio=mask_ratio, if_mask=False) if self.if_cls_token: return self.head(x[:, -1, :]), attn_list else: return self.head(torch.mean(x, dim=1)), attn_list else: x = self.forward_encoder(imgs, mask_ratio=mask_ratio, if_mask=False) if self.if_cls_token: return self.head(x[:, -1, :]) else: return self.head(torch.mean(x, dim=1)) def net_bt_base_pretrain(**kwargs): model = NetTransformer( is_pretrain=True, embed_dim=192, depth=4, decoder_embed_dim=128, decoder_depth=2, **kwargs) return model def net_bt_base_classifier(**kwargs): model = NetTransformer( is_pretrain=False, embed_dim=192, depth=4, **kwargs) return model def net_bt_medium_pretrain(**kwargs): model = NetTransformer( is_pretrain=True, embed_dim=256, depth=4, decoder_embed_dim=128, decoder_depth=2, **kwargs) return model def net_bt_meidum_classifier(**kwargs): model = NetTransformer( is_pretrain=False, embed_dim=256, depth=4, **kwargs) return model def net_bgt_base_pretrain(**kwargs): model = NetTransformer( is_pretrain=True, embed_dim=192, depth=4, decoder_embed_dim=128, decoder_depth=2, block_name="basic-gated", **kwargs) return model def net_bgt_base_classifier(**kwargs): model = NetTransformer( is_pretrain=False, embed_dim=192, depth=4, block_name="basic-gated", **kwargs) return model def net_bgt_medium_pretrain(**kwargs): model = NetTransformer( is_pretrain=True, embed_dim=256, depth=4, decoder_embed_dim=128, decoder_depth=2, block_name="basic-gated", **kwargs) return model def net_bgt_medium_classifier(**kwargs): model = NetTransformer( is_pretrain=False, embed_dim=256, depth=4, block_name="basic-gated", **kwargs) return model def net_ft_base_pretrain(**kwargs): model = NetTransformer( is_pretrain=True, embed_dim=192, depth=4, decoder_embed_dim=128, decoder_depth=2, block_name="flash", **kwargs) return model def net_ft_base_classifier(**kwargs): model = NetTransformer( is_pretrain=False, embed_dim=192, depth=4, block_name="flash", **kwargs) return model def net_fgt_base_pretrain(**kwargs): model = NetTransformer( is_pretrain=True, embed_dim=192, depth=4, decoder_embed_dim=128, decoder_depth=2, block_name="flash-gated", **kwargs) return model def net_fgt_base_classifier(**kwargs): model = NetTransformer( is_pretrain=False, embed_dim=192, depth=4, block_name="flash-gated", **kwargs) return model def net_fgt_medium_pretrain(**kwargs): model = NetTransformer( is_pretrain=True, embed_dim=256, depth=4, decoder_embed_dim=128, decoder_depth=2, block_name="flash-gated", **kwargs) return model def net_fgt_medium_classifier(**kwargs): model = NetTransformer( is_pretrain=False, embed_dim=256, depth=4, block_name="flash-gated", **kwargs) return model def net_lt_base_pretrain(**kwargs): model = NetTransformer( is_pretrain=True, embed_dim=192, depth=4, decoder_embed_dim=128, decoder_depth=2, block_name="linear", **kwargs) return model def net_lt_base_classifier(**kwargs): model = NetTransformer( is_pretrain=False, embed_dim=192, depth=4, block_name="linear", **kwargs) return model def net_st_base_pretrain(**kwargs): model = NetTransformer( is_pretrain=True, embed_dim=192, depth=4, decoder_embed_dim=128, decoder_depth=2, block_name="sparse", if_cls_token=False, **kwargs) return model def net_st_base_classifier(**kwargs): model = NetTransformer( is_pretrain=False, embed_dim=192, depth=4, block_name="sparse", if_cls_token=False, **kwargs) return model